Notes

  • Unclassified reads were excluded
  • Taxa with total reads number of 10 or lower were excluded
  • Eukaryotes were excluded from the analyis

Import Exp data

MCM D6300

MCM D6331

FR D6323

Canis lupus

Homo sapiens

Merge

Filter Exp data

Filter samples based on total read count

Fix sample names

Add lineage and metadata to Gold Standard Data

Limosilactobacillus fermentum in the theoretical composition was changed to Lactobacillus fermentum

## Error in validObject(.Object) : invalid class "otu_table" object: 
##  OTU abundance data must have non-zero dimensions.

Fix sample names from ‘-’

Merge exp data with GS

Filter Taxa for Gold Standard

These are the taxa that were found in the experimental data

Add Gram Stain Info

Omit Eukaryotes

Zymo ONT V1-V9 comparison: Relative abundance of taxa at each taxonomic level

Gram Stain level

Barplot of abundances

Heatmap of VST-normalized abundance values

Phylum level

Barplot of abundacnes

Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus

taxon_level comparison FALSE TRUE
phylum FR_VS_Canis_lupus 2 10
phylum FR_VS_Homo_sapiens 4 8
phylum Homo_sapiens_VS_Canis_lupus 4 8

L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus

FR Taxa that are more similar to H. sapiens than to C. lupus

## Key: <taxon>
##                                   taxon     baseMean log2FoldChange     lfcSE
##                                  <char>        <num>          <num>     <num>
##  1:             Bacteria;Actinobacteria 2.678494e+04     -4.3147007 0.7143088
##  2:              Bacteria;Bacteroidetes 1.802569e+05     -5.2797329 0.3174523
##  3: Bacteria;Candidatus Melainabacteria 6.157036e+02     -0.8421689 0.4205756
##  4:              Bacteria;Cyanobacteria 7.860800e-01      0.3405971 4.6132542
##  5:            Bacteria;Deferribacteres 2.912625e+01      0.0000000 1.0338273
##  6:                 Bacteria;Firmicutes 9.754949e+06     -3.9428775 0.3721534
##  7:               Bacteria;Fusobacteria 8.566745e+03     -4.3047723 0.6444276
##  8:              Bacteria;Lentisphaerae 2.505756e+01      5.3341874 1.0416970
##  9:             Bacteria;Proteobacteria 1.186806e+06     -4.3850262 0.4822045
## 10:              Bacteria;Synergistetes 1.589855e+01      4.6778969 1.2781228
## 11:                Bacteria;Tenericutes 1.012387e+02      5.4848352 0.8345202
## 12:            Bacteria;Verrucomicrobia 1.002575e+03      2.8866396 1.3964790
##             stat       pvalue         padj         comparison superkingdom
##            <num>        <num>        <num>             <char>       <char>
##  1:  -6.04038555 1.537464e-09 3.074928e-09 FR_VS_Homo_sapiens     Bacteria
##  2: -16.63157926 4.116008e-62 4.939209e-61 FR_VS_Homo_sapiens     Bacteria
##  3:  -2.00241979 4.523960e-02 5.428752e-02 FR_VS_Homo_sapiens     Bacteria
##  4:   0.07383011 9.411456e-01 1.000000e+00 FR_VS_Homo_sapiens     Bacteria
##  5:   0.00000000 1.000000e+00 1.000000e+00 FR_VS_Homo_sapiens     Bacteria
##  6: -10.59476385 3.151354e-26 1.890812e-25 FR_VS_Homo_sapiens     Bacteria
##  7:  -6.67999347 2.389529e-11 7.168587e-11 FR_VS_Homo_sapiens     Bacteria
##  8:   5.12067072 3.044509e-07 5.219157e-07 FR_VS_Homo_sapiens     Bacteria
##  9:  -9.09370584 9.571960e-20 3.828784e-19 FR_VS_Homo_sapiens     Bacteria
## 10:   3.65997446 2.522404e-04 3.783606e-04 FR_VS_Homo_sapiens     Bacteria
## 11:   6.57244127 4.949691e-11 1.187926e-10 FR_VS_Homo_sapiens     Bacteria
## 12:   2.06708410 3.872623e-02 5.163497e-02 FR_VS_Homo_sapiens     Bacteria
##                         phylum is.significant taxon_level
##                         <char>         <lgcl>      <char>
##  1:             Actinobacteria           TRUE      phylum
##  2:              Bacteroidetes           TRUE      phylum
##  3: Candidatus Melainabacteria          FALSE      phylum
##  4:              Cyanobacteria          FALSE      phylum
##  5:            Deferribacteres          FALSE      phylum
##  6:                 Firmicutes           TRUE      phylum
##  7:               Fusobacteria           TRUE      phylum
##  8:              Lentisphaerae           TRUE      phylum
##  9:             Proteobacteria           TRUE      phylum
## 10:              Synergistetes           TRUE      phylum
## 11:                Tenericutes           TRUE      phylum
## 12:            Verrucomicrobia          FALSE      phylum

FR Taxa that are more similar to C. lupus than to H. sapiens

## Key: <taxon>
##                      taxon l2fc_Hsap l2fc_Clup         similarity
##                     <char>     <num>     <num>             <char>
## 1: Bacteria;Actinobacteria -4.314701 -2.049692 Closer to C. lupus
## 2:  Bacteria;Bacteroidetes -5.279733  0.340257 Closer to C. lupus
## 3:     Bacteria;Firmicutes -3.942877 -2.006224 Closer to C. lupus
## 4: Bacteria;Proteobacteria -4.385026 -3.525608 Closer to C. lupus
## 5:    Bacteria;Tenericutes  5.484835 -1.399304 Closer to C. lupus

Heatmap of VST-normalized abundance values

Heatmap of Log2 FC values

Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance

Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance

Class level

Barplot of abundances

Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus

taxon_level comparison NA FALSE TRUE
class FR_VS_Canis_lupus 1 3 19
class FR_VS_Homo_sapiens 1 8 14
class Homo_sapiens_VS_Canis_lupus 1 8 14

L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus

FR Taxa that are more similar to H. sapiens than to C. lupus

## Key: <taxon>
##                                              taxon     baseMean log2FoldChange
##                                             <char>        <num>          <num>
##  1:         Bacteria;Actinobacteria;Actinobacteria 2.163387e+04      -3.552107
##  2:         Bacteria;Actinobacteria;Coriobacteriia 4.100346e+03      -2.253738
##  3:             Bacteria;Bacteroidetes;Bacteroidia 7.389264e+04      -3.593074
##  4: Bacteria;Candidatus Melainabacteria;unassigned 3.085921e+02       1.095861
##  5:           Bacteria;Cyanobacteria;Gloeobacteria 8.217386e-01       2.175359
##  6:              Bacteria;Cyanobacteria;unassigned 0.000000e+00       0.000000
##  7:       Bacteria;Deferribacteres;Deferribacteres 2.075853e+01       0.000000
##  8:                    Bacteria;Firmicutes;Bacilli 2.059146e+07      -1.398403
##  9:                 Bacteria;Firmicutes;Clostridia 7.575267e+05      -2.018137
## 10:           Bacteria;Firmicutes;Erysipelotrichia 2.682187e+03       1.154621
## 11:              Bacteria;Firmicutes;Negativicutes 1.536838e+05      -2.483577
## 12:               Bacteria;Firmicutes;Tissierellia 4.571805e+00       2.122668
## 13:                 Bacteria;Firmicutes;unassigned 4.507295e+00       4.630709
## 14:            Bacteria;Fusobacteria;Fusobacteriia 1.001747e+04      -2.827207
## 15:           Bacteria;Lentisphaerae;Lentisphaeria 2.121432e+01       6.865458
## 16:    Bacteria;Proteobacteria;Alphaproteobacteria 5.645376e+02      -4.034546
## 17:     Bacteria;Proteobacteria;Betaproteobacteria 3.590787e+03      -2.735312
## 18:    Bacteria;Proteobacteria;Deltaproteobacteria 1.280929e+02      -2.159751
## 19:  Bacteria;Proteobacteria;Epsilonproteobacteria 4.267906e+01       0.000000
## 20:    Bacteria;Proteobacteria;Gammaproteobacteria 3.163466e+06      -1.825525
## 21:             Bacteria;Synergistetes;Synergistia 1.385104e+01       6.250748
## 22:                Bacteria;Tenericutes;Mollicutes 7.047844e+01       7.305580
## 23:      Bacteria;Verrucomicrobia;Verrucomicrobiae 1.654620e+03       4.504165
##                                              taxon     baseMean log2FoldChange
##         lfcSE        stat       pvalue         padj         comparison
##         <num>       <num>        <num>        <num>             <char>
##  1: 0.8543358  -4.1577411 3.214100e-05 5.892516e-05 FR_VS_Homo_sapiens
##  2: 1.2359175  -1.8235344 6.822249e-02 8.828792e-02 FR_VS_Homo_sapiens
##  3: 0.1866733 -19.2479314 1.469128e-82 3.232082e-81 FR_VS_Homo_sapiens
##  4: 0.2318196   4.7272154 2.276198e-06 5.007635e-06 FR_VS_Homo_sapiens
##  5: 4.6131269   0.4715584 6.372420e-01 7.009662e-01 FR_VS_Homo_sapiens
##  6: 0.0000000   0.0000000 1.000000e+00           NA FR_VS_Homo_sapiens
##  7: 0.9799557   0.0000000 1.000000e+00 1.000000e+00 FR_VS_Homo_sapiens
##  8: 0.2498173  -5.5977035 2.172098e-08 5.309574e-08 FR_VS_Homo_sapiens
##  9: 0.1770901 -11.3961023 4.372605e-30 3.206577e-29 FR_VS_Homo_sapiens
## 10: 0.9262408   1.2465666 2.125564e-01 2.597912e-01 FR_VS_Homo_sapiens
## 11: 0.1910992 -12.9962680 1.284608e-38 1.413069e-37 FR_VS_Homo_sapiens
## 12: 3.2771459   0.6477185 5.171670e-01 5.988250e-01 FR_VS_Homo_sapiens
## 13: 2.2847786   2.0267648 4.268648e-02 6.260683e-02 FR_VS_Homo_sapiens
## 14: 0.4852630  -5.8261330 5.672640e-09 1.559976e-08 FR_VS_Homo_sapiens
## 15: 0.6969369   9.8509025 6.793123e-23 2.988974e-22 FR_VS_Homo_sapiens
## 16: 0.3630938 -11.1115804 1.101919e-28 6.060552e-28 FR_VS_Homo_sapiens
## 17: 1.1568650  -2.3644176 1.805844e-02 2.837755e-02 FR_VS_Homo_sapiens
## 18: 1.1071893  -1.9506610 5.109739e-02 7.025891e-02 FR_VS_Homo_sapiens
## 19: 0.9761045   0.0000000 1.000000e+00 1.000000e+00 FR_VS_Homo_sapiens
## 20: 0.4238004  -4.3075124 1.651008e-05 3.302016e-05 FR_VS_Homo_sapiens
## 21: 0.7141698   8.7524668 2.087389e-18 6.560365e-18 FR_VS_Homo_sapiens
## 22: 0.7486809   9.7579363 1.705911e-22 6.255007e-22 FR_VS_Homo_sapiens
## 23: 1.4130954   3.1874459 1.435353e-03 2.429059e-03 FR_VS_Homo_sapiens
##         lfcSE        stat       pvalue         padj         comparison
##     superkingdom                     phylum                 class
##           <char>                     <char>                <char>
##  1:     Bacteria             Actinobacteria        Actinobacteria
##  2:     Bacteria             Actinobacteria        Coriobacteriia
##  3:     Bacteria              Bacteroidetes           Bacteroidia
##  4:     Bacteria Candidatus Melainabacteria            unassigned
##  5:     Bacteria              Cyanobacteria         Gloeobacteria
##  6:     Bacteria              Cyanobacteria            unassigned
##  7:     Bacteria            Deferribacteres       Deferribacteres
##  8:     Bacteria                 Firmicutes               Bacilli
##  9:     Bacteria                 Firmicutes            Clostridia
## 10:     Bacteria                 Firmicutes      Erysipelotrichia
## 11:     Bacteria                 Firmicutes         Negativicutes
## 12:     Bacteria                 Firmicutes          Tissierellia
## 13:     Bacteria                 Firmicutes            unassigned
## 14:     Bacteria               Fusobacteria         Fusobacteriia
## 15:     Bacteria              Lentisphaerae         Lentisphaeria
## 16:     Bacteria             Proteobacteria   Alphaproteobacteria
## 17:     Bacteria             Proteobacteria    Betaproteobacteria
## 18:     Bacteria             Proteobacteria   Deltaproteobacteria
## 19:     Bacteria             Proteobacteria Epsilonproteobacteria
## 20:     Bacteria             Proteobacteria   Gammaproteobacteria
## 21:     Bacteria              Synergistetes           Synergistia
## 22:     Bacteria                Tenericutes            Mollicutes
## 23:     Bacteria            Verrucomicrobia      Verrucomicrobiae
##     superkingdom                     phylum                 class
##     is.significant taxon_level
##             <lgcl>      <char>
##  1:           TRUE       class
##  2:          FALSE       class
##  3:           TRUE       class
##  4:           TRUE       class
##  5:          FALSE       class
##  6:             NA       class
##  7:          FALSE       class
##  8:           TRUE       class
##  9:           TRUE       class
## 10:          FALSE       class
## 11:           TRUE       class
## 12:          FALSE       class
## 13:          FALSE       class
## 14:           TRUE       class
## 15:           TRUE       class
## 16:           TRUE       class
## 17:           TRUE       class
## 18:          FALSE       class
## 19:          FALSE       class
## 20:           TRUE       class
## 21:           TRUE       class
## 22:           TRUE       class
## 23:           TRUE       class
##     is.significant taxon_level

FR Taxa that are more similar to C. lupus than to H. sapiens

## Key: <taxon>
##                                          taxon l2fc_Hsap  l2fc_Clup
##                                         <char>     <num>      <num>
## 1:      Bacteria;Actinobacteria;Actinobacteria -3.552107 -0.8061817
## 2:          Bacteria;Bacteroidetes;Bacteroidia -3.593074  0.4412043
## 3:              Bacteria;Firmicutes;Clostridia -2.018137 -1.0458363
## 4: Bacteria;Proteobacteria;Alphaproteobacteria -4.034546 -1.2332693
## 5:             Bacteria;Tenericutes;Mollicutes  7.305580 -0.5344194
##            similarity
##                <char>
## 1: Closer to C. lupus
## 2: Closer to C. lupus
## 3: Closer to C. lupus
## 4: Closer to C. lupus
## 5: Closer to C. lupus

Heatmap of VST-normalized abundance values

Heatmap of Log2 FC values

Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance

Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance

Order level

Barplot of abundances

Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus

taxon_level comparison NA FALSE TRUE
order FR_VS_Canis_lupus 4 15 25
order FR_VS_Homo_sapiens 12 12 20
order Homo_sapiens_VS_Canis_lupus 5 19 20

L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus

FR Taxa that are more similar to H. sapiens than to C. lupus

## Key: <taxon>
##                                                                 taxon
##                                                                <char>
##  1:          Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales
##  2:          Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales
##  3:              Bacteria;Actinobacteria;Actinobacteria;Micrococcales
##  4:        Bacteria;Actinobacteria;Actinobacteria;Propionibacteriales
##  5:           Bacteria;Actinobacteria;Actinobacteria;Streptomycetales
##  6:           Bacteria;Actinobacteria;Coriobacteriia;Coriobacteriales
##  7:             Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales
##  8:                  Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales
##  9: Bacteria;Candidatus Melainabacteria;unassigned;Vampirovibrionales
## 10:              Bacteria;Cyanobacteria;Gloeobacteria;Gloeobacterales
## 11:                 Bacteria;Cyanobacteria;unassigned;Oscillatoriales
## 12:        Bacteria;Deferribacteres;Deferribacteres;Deferribacterales
## 13:                            Bacteria;Firmicutes;Bacilli;Bacillales
## 14:                       Bacteria;Firmicutes;Bacilli;Lactobacillales
## 15:                      Bacteria;Firmicutes;Clostridia;Clostridiales
## 16:             Bacteria;Firmicutes;Clostridia;Thermoanaerobacterales
## 17:           Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales
## 18:               Bacteria;Firmicutes;Negativicutes;Acidaminococcales
## 19:                 Bacteria;Firmicutes;Negativicutes;Selenomonadales
## 20:                  Bacteria;Firmicutes;Negativicutes;Veillonellales
## 21:                   Bacteria;Firmicutes;Tissierellia;Tissierellales
## 22:                         Bacteria;Firmicutes;unassigned;unassigned
## 23:               Bacteria;Fusobacteria;Fusobacteriia;Fusobacteriales
## 24:                Bacteria;Lentisphaerae;Lentisphaeria;Victivallales
## 25:       Bacteria;Proteobacteria;Alphaproteobacteria;Caulobacterales
## 26:         Bacteria;Proteobacteria;Alphaproteobacteria;Kiloniellales
## 27:           Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales
## 28:       Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales
## 29:      Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales
## 30:        Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales
## 31:        Bacteria;Proteobacteria;Betaproteobacteria;Burkholderiales
## 32:        Bacteria;Proteobacteria;Deltaproteobacteria;Bradymonadales
## 33:     Bacteria;Proteobacteria;Deltaproteobacteria;Desulfobacterales
## 34:    Bacteria;Proteobacteria;Deltaproteobacteria;Desulfovibrionales
## 35:   Bacteria;Proteobacteria;Epsilonproteobacteria;Campylobacterales
## 36:         Bacteria;Proteobacteria;Gammaproteobacteria;Aeromonadales
## 37:      Bacteria;Proteobacteria;Gammaproteobacteria;Enterobacterales
## 38:        Bacteria;Proteobacteria;Gammaproteobacteria;Pasteurellales
## 39:       Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales
## 40:                  Bacteria;Synergistetes;Synergistia;Synergistales
## 41:                 Bacteria;Tenericutes;Mollicutes;Acholeplasmatales
## 42:                 Bacteria;Tenericutes;Mollicutes;Anaeroplasmatales
## 43:                   Bacteria;Tenericutes;Mollicutes;Mycoplasmatales
## 44:      Bacteria;Verrucomicrobia;Verrucomicrobiae;Verrucomicrobiales
##                                                                 taxon
##         baseMean log2FoldChange     lfcSE        stat       pvalue         padj
##            <num>          <num>     <num>       <num>        <num>        <num>
##  1: 3.789964e+04     -3.1297966 0.8624978  -3.6287591 2.847868e-04 5.695737e-04
##  2: 1.213955e+00     -8.5485216 4.6318256  -1.8456052 6.494955e-02           NA
##  3: 0.000000e+00      0.0000000 0.0000000   0.0000000 1.000000e+00           NA
##  4: 4.599213e+00      0.0000000 3.3990151   0.0000000 1.000000e+00 1.000000e+00
##  5: 0.000000e+00      0.0000000 0.0000000   0.0000000 1.000000e+00           NA
##  6: 2.408592e+03     -2.0048023 1.3027846  -1.5388594 1.238386e-01 1.585134e-01
##  7: 5.338740e+02     -1.6851028 0.4120017  -4.0900388 4.313010e-05 9.858308e-05
##  8: 9.682099e+04     -3.3073901 0.2230242 -14.8297379 9.409964e-50 3.011189e-48
##  9: 2.961092e+02      1.2962180 0.2351245   5.5128999 3.529690e-08 1.129501e-07
## 10: 7.502370e-01      2.2191943 4.6132422   0.4810487 6.304819e-01           NA
## 11: 0.000000e+00      0.0000000 0.0000000   0.0000000 1.000000e+00           NA
## 12: 1.444046e+01      0.0000000 0.9758301   0.0000000 1.000000e+00 1.000000e+00
## 13: 9.390708e+06     -1.9804948 0.3452943  -5.7356712 9.712693e-09 3.453402e-08
## 14: 3.869620e+06     -0.4769474 0.3035654  -1.5711521 1.161473e-01 1.548631e-01
## 15: 8.288821e+05     -1.8125608 0.2518312  -7.1975230 6.131622e-13 2.452649e-12
## 16: 3.620653e+00      4.4897578 3.3864738   1.3257914 1.849088e-01           NA
## 17: 2.136035e+03      1.3506158 0.9974398   1.3540826 1.757100e-01 2.162585e-01
## 18: 1.476085e+04     -4.1946326 0.5326293  -7.8753323 3.398383e-15 1.553547e-14
## 19: 1.051019e+04      4.2118163 0.4313543   9.7641687 1.604222e-22 1.404130e-21
## 20: 2.926565e+05     -0.9714429 0.2715736  -3.5770894 3.474413e-04 6.540072e-04
## 21: 4.647484e+00      1.9370953 3.0878805   0.6273220 5.304482e-01 6.286793e-01
## 22: 4.611862e+00      4.8387944 2.6808715   1.8049333 7.108511e-02 9.890103e-02
## 23: 2.148609e+04     -2.5487737 0.5343924  -4.7694797 1.847024e-06 4.546520e-06
## 24: 2.235640e+01      7.1150450 0.7003288  10.1595775 3.003752e-24 4.806003e-23
## 25: 2.285708e+00      3.8261728 4.3629232   0.8769746 3.805004e-01           NA
## 26: 3.167334e+01      2.2596052 1.0253643   2.2037097 2.754477e-02 4.407163e-02
## 27: 2.321948e+02     -6.1503937 1.6531186  -3.7204793 1.988451e-04 4.242028e-04
## 28: 0.000000e+00      0.0000000 0.0000000   0.0000000 1.000000e+00           NA
## 29: 2.008335e+02     -4.2149736 0.8521472  -4.9462974 7.563837e-07 2.017023e-06
## 30: 1.388626e+01    -12.0665300 2.4282203  -4.9692897 6.719861e-07 1.954869e-06
## 31: 2.637922e+03     -2.4531022 1.1667087  -2.1025833 3.550221e-02 5.409860e-02
## 32: 1.919541e+00      3.5742299 4.6128303   0.7748453 4.384311e-01           NA
## 33: 3.668843e+00      4.5087725 4.3202257   1.0436428 2.966507e-01           NA
## 34: 1.051651e+02     -2.1787117 1.1567417  -1.8834902 5.963397e-02 8.674032e-02
## 35: 3.006470e+01      0.0000000 0.9811436   0.0000000 1.000000e+00 1.000000e+00
## 36: 1.378041e+02      0.0000000 1.6179131   0.0000000 1.000000e+00 1.000000e+00
## 37: 2.098009e+06     -1.5406663 0.4942531  -3.1171608 1.826019e-03 3.075401e-03
## 38: 2.038385e+00      3.6609623 4.6128148   0.7936504 4.273990e-01           NA
## 39: 1.120893e+05    -11.7997057 1.3710168  -8.6065365 7.530120e-18 4.016064e-17
## 40: 1.451048e+01      6.4919215 0.7121435   9.1160295 7.792706e-20 4.987332e-19
## 41: 2.672039e+01      7.3729252 0.7558061   9.7550488 1.755162e-22 1.404130e-21
## 42: 3.107746e+01      0.0000000 1.2329045   0.0000000 1.000000e+00 1.000000e+00
## 43: 3.062292e+00      4.2480970 4.6127316   0.9209504 3.570763e-01           NA
## 44: 3.744499e+03      4.8328916 1.4209742   3.4011115 6.711244e-04 1.193110e-03
##         baseMean log2FoldChange     lfcSE        stat       pvalue         padj
##             comparison superkingdom                     phylum
##                 <char>       <char>                     <char>
##  1: FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  2: FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  3: FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  4: FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  5: FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  6: FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  7: FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  8: FR_VS_Homo_sapiens     Bacteria              Bacteroidetes
##  9: FR_VS_Homo_sapiens     Bacteria Candidatus Melainabacteria
## 10: FR_VS_Homo_sapiens     Bacteria              Cyanobacteria
## 11: FR_VS_Homo_sapiens     Bacteria              Cyanobacteria
## 12: FR_VS_Homo_sapiens     Bacteria            Deferribacteres
## 13: FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 14: FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 15: FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 16: FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 17: FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 18: FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 19: FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 20: FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 21: FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 22: FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 23: FR_VS_Homo_sapiens     Bacteria               Fusobacteria
## 24: FR_VS_Homo_sapiens     Bacteria              Lentisphaerae
## 25: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 26: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 27: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 28: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 29: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 30: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 31: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 32: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 33: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 34: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 35: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 36: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 37: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 38: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 39: FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 40: FR_VS_Homo_sapiens     Bacteria              Synergistetes
## 41: FR_VS_Homo_sapiens     Bacteria                Tenericutes
## 42: FR_VS_Homo_sapiens     Bacteria                Tenericutes
## 43: FR_VS_Homo_sapiens     Bacteria                Tenericutes
## 44: FR_VS_Homo_sapiens     Bacteria            Verrucomicrobia
##             comparison superkingdom                     phylum
##                     class                  order is.significant taxon_level
##                    <char>                 <char>         <lgcl>      <char>
##  1:        Actinobacteria      Bifidobacteriales           TRUE       order
##  2:        Actinobacteria      Corynebacteriales             NA       order
##  3:        Actinobacteria          Micrococcales             NA       order
##  4:        Actinobacteria    Propionibacteriales          FALSE       order
##  5:        Actinobacteria       Streptomycetales             NA       order
##  6:        Coriobacteriia       Coriobacteriales          FALSE       order
##  7:        Coriobacteriia         Eggerthellales           TRUE       order
##  8:           Bacteroidia          Bacteroidales           TRUE       order
##  9:            unassigned     Vampirovibrionales           TRUE       order
## 10:         Gloeobacteria        Gloeobacterales             NA       order
## 11:            unassigned        Oscillatoriales             NA       order
## 12:       Deferribacteres      Deferribacterales          FALSE       order
## 13:               Bacilli             Bacillales           TRUE       order
## 14:               Bacilli        Lactobacillales          FALSE       order
## 15:            Clostridia          Clostridiales           TRUE       order
## 16:            Clostridia Thermoanaerobacterales             NA       order
## 17:      Erysipelotrichia     Erysipelotrichales          FALSE       order
## 18:         Negativicutes      Acidaminococcales           TRUE       order
## 19:         Negativicutes        Selenomonadales           TRUE       order
## 20:         Negativicutes         Veillonellales           TRUE       order
## 21:          Tissierellia         Tissierellales          FALSE       order
## 22:            unassigned             unassigned          FALSE       order
## 23:         Fusobacteriia        Fusobacteriales           TRUE       order
## 24:         Lentisphaeria          Victivallales           TRUE       order
## 25:   Alphaproteobacteria        Caulobacterales             NA       order
## 26:   Alphaproteobacteria          Kiloniellales           TRUE       order
## 27:   Alphaproteobacteria            Rhizobiales           TRUE       order
## 28:   Alphaproteobacteria        Rhodobacterales             NA       order
## 29:   Alphaproteobacteria       Rhodospirillales           TRUE       order
## 30:   Alphaproteobacteria         Sneathiellales           TRUE       order
## 31:    Betaproteobacteria        Burkholderiales          FALSE       order
## 32:   Deltaproteobacteria         Bradymonadales             NA       order
## 33:   Deltaproteobacteria      Desulfobacterales             NA       order
## 34:   Deltaproteobacteria     Desulfovibrionales          FALSE       order
## 35: Epsilonproteobacteria      Campylobacterales          FALSE       order
## 36:   Gammaproteobacteria          Aeromonadales          FALSE       order
## 37:   Gammaproteobacteria       Enterobacterales           TRUE       order
## 38:   Gammaproteobacteria         Pasteurellales             NA       order
## 39:   Gammaproteobacteria        Pseudomonadales           TRUE       order
## 40:           Synergistia          Synergistales           TRUE       order
## 41:            Mollicutes      Acholeplasmatales           TRUE       order
## 42:            Mollicutes      Anaeroplasmatales          FALSE       order
## 43:            Mollicutes        Mycoplasmatales             NA       order
## 44:      Verrucomicrobiae     Verrucomicrobiales           TRUE       order
##                     class                  order is.significant taxon_level

FR Taxa that are more similar to C. lupus than to H. sapiens

## Key: <taxon>
##                                                            taxon   l2fc_Hsap
##                                                           <char>       <num>
##  1:     Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales  -3.1297966
##  2:     Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales  -8.5485216
##  3:        Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales  -1.6851028
##  4:             Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales  -3.3073901
##  5:                       Bacteria;Firmicutes;Bacilli;Bacillales  -1.9804948
##  6:                 Bacteria;Firmicutes;Clostridia;Clostridiales  -1.8125608
##  7:          Bacteria;Firmicutes;Negativicutes;Acidaminococcales  -4.1946326
##  8:            Bacteria;Firmicutes;Negativicutes;Selenomonadales   4.2118163
##  9:             Bacteria;Firmicutes;Negativicutes;Veillonellales  -0.9714429
## 10:    Bacteria;Proteobacteria;Alphaproteobacteria;Kiloniellales   2.2596052
## 11:      Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales  -6.1503937
## 12: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales  -4.2149736
## 13:   Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales -12.0665300
## 14:  Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales -11.7997057
##        l2fc_Clup         similarity
##            <num>             <char>
##  1:   0.05145230 Closer to C. lupus
##  2:  -1.03832095 Closer to C. lupus
##  3:  -0.68947019 Closer to C. lupus
##  4:   1.10714242 Closer to C. lupus
##  5:  -0.90401405 Closer to C. lupus
##  6:  -0.46365319 Closer to C. lupus
##  7:  -3.16485407 Closer to C. lupus
##  8:  -2.60221612 Closer to C. lupus
##  9:  -0.68016762 Closer to C. lupus
## 10:  -0.04319134 Closer to C. lupus
## 11:   1.07597191 Closer to C. lupus
## 12:  -1.78196847 Closer to C. lupus
## 13:   0.00000000 Closer to C. lupus
## 14: -10.31874938 Closer to C. lupus

Heatmap of VST-normalized abundance values

Heatmap of Log2 FC values

Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance

Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance

Family level

Barplot of abundances

Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus

taxon_level comparison NA FALSE TRUE
family FR_VS_Canis_lupus 7 25 52
family FR_VS_Homo_sapiens 12 33 39
family Homo_sapiens_VS_Canis_lupus 7 41 36

L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus

FR Taxa that are more similar to H. sapiens than to C. lupus

## Key: <taxon>
##                                                                                                      taxon
##                                                                                                     <char>
##  1:                            Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae
##  2:                               Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales;Segniliparaceae
##  3:                                 Bacteria;Actinobacteria;Actinobacteria;Micrococcales;Cellulomonadaceae
##  4:                        Bacteria;Actinobacteria;Actinobacteria;Propionibacteriales;Propionibacteriaceae
##  5:                              Bacteria;Actinobacteria;Actinobacteria;Streptomycetales;Streptomycetaceae
##  6:                                   Bacteria;Actinobacteria;Coriobacteriia;Coriobacteriales;Atopobiaceae
##  7:                              Bacteria;Actinobacteria;Coriobacteriia;Coriobacteriales;Coriobacteriaceae
##  8:                                  Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales;Eggerthellaceae
##  9:                                        Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Bacteroidaceae
## 10:                                       Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Barnesiellaceae
## 11:                                        Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Muribaculaceae
## 12:                                      Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Odoribacteraceae
## 13:                                    Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Porphyromonadaceae
## 14:                                        Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Prevotellaceae
## 15:                                         Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Rikenellaceae
## 16:                                        Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Tannerellaceae
## 17:                                            Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;unassigned
## 18:                           Bacteria;Candidatus Melainabacteria;unassigned;Vampirovibrionales;unassigned
## 19:                                  Bacteria;Cyanobacteria;Gloeobacteria;Gloeobacterales;Gloeobacteraceae
## 20:                                     Bacteria;Cyanobacteria;unassigned;Oscillatoriales;Oscillatoriaceae
## 21:                          Bacteria;Deferribacteres;Deferribacteres;Deferribacterales;Deferribacteraceae
## 22:                                                     Bacteria;Firmicutes;Bacilli;Bacillales;Bacillaceae
## 23:                                                    Bacteria;Firmicutes;Bacilli;Bacillales;Listeriaceae
## 24:                                                Bacteria;Firmicutes;Bacilli;Bacillales;Paenibacillaceae
## 25:                                                  Bacteria;Firmicutes;Bacilli;Bacillales;Planococcaceae
## 26:                                               Bacteria;Firmicutes;Bacilli;Bacillales;Staphylococcaceae
## 27:                                          Bacteria;Firmicutes;Bacilli;Bacillales;Thermoactinomycetaceae
## 28:                                            Bacteria;Firmicutes;Bacilli;Lactobacillales;Enterococcaceae
## 29:                                           Bacteria;Firmicutes;Bacilli;Lactobacillales;Lactobacillaceae
## 30:                                           Bacteria;Firmicutes;Bacilli;Lactobacillales;Streptococcaceae
## 31:                                                          Bacteria;Firmicutes;Clostridia;Clostridiales;
## 32:                                     Bacteria;Firmicutes;Clostridia;Clostridiales;Caldicoprobacteraceae
## 33:                                          Bacteria;Firmicutes;Clostridia;Clostridiales;Catabacteriaceae
## 34:                                       Bacteria;Firmicutes;Clostridia;Clostridiales;Christensenellaceae
## 35:                                            Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae
## 36:                  Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiales Family XII. Incertae Sedis
## 37:                 Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiales Family XIII. Incertae Sedis
## 38:                                         Bacteria;Firmicutes;Clostridia;Clostridiales;Defluviitaleaceae
## 39:                                            Bacteria;Firmicutes;Clostridia;Clostridiales;Eubacteriaceae
## 40:                                        Bacteria;Firmicutes;Clostridia;Clostridiales;Gracilibacteraceae
## 41:                                    Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae
## 42:                                           Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae
## 43:                                          Bacteria;Firmicutes;Clostridia;Clostridiales;Oscillospiraceae
## 44:                                            Bacteria;Firmicutes;Clostridia;Clostridiales;Peptococcaceae
## 45:                                     Bacteria;Firmicutes;Clostridia;Clostridiales;Peptostreptococcaceae
## 46:                                           Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae
## 47:                                            Bacteria;Firmicutes;Clostridia;Clostridiales;Vallitaleaceae
## 48:                                                Bacteria;Firmicutes;Clostridia;Clostridiales;unassigned
## 49: Bacteria;Firmicutes;Clostridia;Thermoanaerobacterales;Thermoanaerobacterales Family IV. Incertae Sedis
## 50:                            Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae
## 51:                                 Bacteria;Firmicutes;Negativicutes;Acidaminococcales;Acidaminococcaceae
## 52:                                     Bacteria;Firmicutes;Negativicutes;Selenomonadales;Selenomonadaceae
## 53:                                        Bacteria;Firmicutes;Negativicutes;Selenomonadales;Sporomusaceae
## 54:                                       Bacteria;Firmicutes;Negativicutes;Veillonellales;Veillonellaceae
## 55:                                       Bacteria;Firmicutes;Tissierellia;Tissierellales;Gottschalkiaceae
## 56:                                                   Bacteria;Firmicutes;unassigned;unassigned;unassigned
## 57:                                   Bacteria;Fusobacteria;Fusobacteriia;Fusobacteriales;Fusobacteriaceae
## 58:                                                    Bacteria;Lentisphaerae;Lentisphaeria;Victivallales;
## 59:                                      Bacteria;Lentisphaerae;Lentisphaeria;Victivallales;Victivallaceae
## 60:                           Bacteria;Proteobacteria;Alphaproteobacteria;Caulobacterales;Caulobacteraceae
## 61:                               Bacteria;Proteobacteria;Alphaproteobacteria;Kiloniellales;Kiloniellaceae
## 62:                              Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Aurantimonadaceae
## 63:                             Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Cohaesibacteraceae
## 64:                               Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Methylocystaceae
## 65:                                   Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Rhizobiaceae
## 66:                           Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales;Rhodobacteraceae
## 67:                          Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Acetobacteraceae
## 68:                         Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae
## 69:                             Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales;Sneathiellaceae
## 70:                            Bacteria;Proteobacteria;Betaproteobacteria;Burkholderiales;Oxalobacteraceae
## 71:                              Bacteria;Proteobacteria;Betaproteobacteria;Burkholderiales;Sutterellaceae
## 72:                                  Bacteria;Proteobacteria;Deltaproteobacteria;Bradymonadales;unassigned
## 73:                       Bacteria;Proteobacteria;Deltaproteobacteria;Desulfobacterales;Desulfobacteraceae
## 74:                     Bacteria;Proteobacteria;Deltaproteobacteria;Desulfovibrionales;Desulfovibrionaceae
## 75:                     Bacteria;Proteobacteria;Epsilonproteobacteria;Campylobacterales;Campylobacteraceae
## 76:                          Bacteria;Proteobacteria;Gammaproteobacteria;Aeromonadales;Succinivibrionaceae
## 77:                        Bacteria;Proteobacteria;Gammaproteobacteria;Enterobacterales;Enterobacteriaceae
## 78:                             Bacteria;Proteobacteria;Gammaproteobacteria;Pasteurellales;Pasteurellaceae
## 79:                           Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales;Pseudomonadaceae
## 80:                                        Bacteria;Synergistetes;Synergistia;Synergistales;Synergistaceae
## 81:                                   Bacteria;Tenericutes;Mollicutes;Acholeplasmatales;Acholeplasmataceae
## 82:                                   Bacteria;Tenericutes;Mollicutes;Anaeroplasmatales;Anaeroplasmataceae
## 83:                                       Bacteria;Tenericutes;Mollicutes;Mycoplasmatales;Mycoplasmataceae
## 84:                           Bacteria;Verrucomicrobia;Verrucomicrobiae;Verrucomicrobiales;Akkermansiaceae
##                                                                                                      taxon
##         baseMean log2FoldChange     lfcSE         stat       pvalue
##            <num>          <num>     <num>        <num>        <num>
##  1: 1.345469e+05     -3.2663218 0.8846475  -3.69222958 2.222967e-04
##  2: 7.249884e-01     -8.6093129 4.6305487  -1.85924251 6.299277e-02
##  3: 0.000000e+00      0.0000000 0.0000000   0.00000000 1.000000e+00
##  4: 4.371846e+00      0.0000000 3.5082884   0.00000000 1.000000e+00
##  5: 0.000000e+00      0.0000000 0.0000000   0.00000000 1.000000e+00
##  6: 6.583410e-01      0.0000000 4.6624318   0.00000000 1.000000e+00
##  7: 2.079189e+03     -2.0343653 1.2860961  -1.58181439 1.136919e-01
##  8: 3.619840e+02     -1.6836342 0.4030802  -4.17692116 2.954814e-05
##  9: 2.206729e+05     -3.6123176 0.2803238 -12.88622996 5.381072e-38
## 10: 1.192582e+03     -5.4369514 1.5291879  -3.55545016 3.773325e-04
## 11: 4.173020e+00      0.0000000 4.6624318   0.00000000 1.000000e+00
## 12: 2.834281e+02     -0.6261539 0.9011437  -0.69484357 4.871533e-01
## 13: 9.464097e-02      0.1158891 4.6154999   0.02510868 9.799683e-01
## 14: 1.181086e+02      0.0000000 0.9963727   0.00000000 1.000000e+00
## 15: 1.625402e+03     -3.7730963 1.0943208  -3.44788877 5.649867e-04
## 16: 3.106285e+02     11.0709957 0.7204406  15.36697870 2.725875e-53
## 17: 1.388297e+04     -3.2327432 0.6640427  -4.86827641 1.125758e-06
## 18: 1.754824e+02      1.4544885 0.1822940   7.97880661 1.477549e-15
## 19: 3.960766e-01      2.1800004 4.6132679   0.47255015 6.365342e-01
## 20: 0.000000e+00      0.0000000 0.0000000   0.00000000 1.000000e+00
## 21: 1.513253e+01      0.0000000 0.9955425   0.00000000 1.000000e+00
## 22: 3.823555e+06     -2.0186244 0.4256241  -4.74273968 2.108471e-06
## 23: 1.513420e+06     -2.0955323 0.5043314  -4.15506964 3.251885e-05
## 24: 4.102248e+02      3.4794528 2.4377710   1.42730913 1.534908e-01
## 25: 0.000000e+00      0.0000000 0.0000000   0.00000000 1.000000e+00
## 26: 1.748064e+06     -1.8625862 0.4973307  -3.74516680 1.802740e-04
## 27: 4.624176e+03     -1.7733619 0.2915319  -6.08290884 1.180215e-09
## 28: 1.598149e+06     -1.9431586 0.4016660  -4.83774693 1.313192e-06
## 29: 1.437264e+06      0.5208545 0.3062958   1.70049487 8.903788e-02
## 30: 4.585255e+04     -0.7582650 0.3600557  -2.10596552 3.520735e-02
## 31: 4.457552e+02     -0.1150474 0.1334567  -0.86205776 3.886557e-01
## 32: 1.385388e+00      3.9861052 3.7687262   1.05767971 2.902015e-01
## 33: 7.165768e+01      1.7785481 0.1630268  10.90954265 1.037771e-27
## 34: 6.916398e+02      2.7533320 0.1394507  19.74412053 9.012020e-87
## 35: 4.309598e+03     -1.4555051 1.1377737  -1.27925708 2.008065e-01
## 36: 0.000000e+00      0.0000000 0.0000000   0.00000000 1.000000e+00
## 37: 7.674663e+03     -1.3509657 0.6377111  -2.11846042 3.413609e-02
## 38: 0.000000e+00      0.0000000 0.0000000   0.00000000 1.000000e+00
## 39: 2.309687e+03     -0.3027821 1.2457211  -0.24305771 8.079607e-01
## 40: 3.619256e+00      5.3713972 1.5250645   3.52207877 4.281769e-04
## 41: 1.262800e+03      0.7973955 1.2420277   0.64201105 5.208660e-01
## 42: 4.720129e+05     -2.1265353 0.2747386  -7.74021351 9.925000e-15
## 43: 2.376802e+03      0.6357975 1.2004557   0.52963013 5.963684e-01
## 44: 1.213736e+03      4.8216677 1.3750216   3.50661233 4.538498e-04
## 45: 2.488053e+05      0.9395678 0.2990948   3.14137154 1.681586e-03
## 46: 8.366078e+05     -1.0640676 0.2980849  -3.56968002 3.574175e-04
## 47: 1.463528e+01      7.3879727 0.6907781  10.69514635 1.072502e-26
## 48: 3.222602e+03     -0.6621443 0.8707339  -0.76044392 4.469893e-01
## 49: 2.065780e+00      4.5624869 3.6811088   1.23943278 2.151853e-01
## 50: 2.040864e+03      1.4313731 0.9745212   1.46879625 1.418881e-01
## 51: 1.071955e+04     -4.0483403 0.5434157  -7.44980299 9.347972e-14
## 52: 1.046237e+04      4.3671750 0.4549956   9.59827990 8.128965e-22
## 53: 1.967536e+00     -1.1453513 4.5723175  -0.25049689 8.022031e-01
## 54: 1.178477e+06     -0.8958716 0.3253683  -2.75340807 5.897833e-03
## 55: 2.545664e+00      2.5329238 3.2578046   0.77749408 4.368673e-01
## 56: 2.630016e+00      4.9108352 2.9272052   1.67765320 9.341482e-02
## 57: 8.082758e+04     -2.4084980 0.5773714  -4.17148803 3.026170e-05
## 58: 1.101254e+01      6.9766841 0.7084102   9.84836744 6.966635e-23
## 59: 1.718654e+00      4.2970514 2.9874273   1.43837855 1.503267e-01
## 60: 1.455749e+00      4.0575458 4.6127569   0.87963574 3.790567e-01
## 61: 2.361182e+01      2.8147458 0.9613838   2.92780664 3.413623e-03
## 62: 4.312379e+00    -11.1862966 3.2542603  -3.43743146 5.872593e-04
## 63: 5.758558e+01    -14.9263778 0.7432388 -20.08288326 1.041696e-89
## 64: 2.507089e+01    -13.7249573 1.9289001  -7.11543170 1.115631e-12
## 65: 3.254856e+01     -3.9049249 1.9048093  -2.05003454 4.036106e-02
## 66: 0.000000e+00      0.0000000 0.0000000   0.00000000 1.000000e+00
## 67: 2.356965e+00      0.0000000 4.6624318   0.00000000 1.000000e+00
## 68: 1.171449e+02     -4.0085322 0.8529851  -4.69941665 2.609057e-06
## 69: 6.965969e+00    -11.8780238 2.5591357  -4.64142005 3.460229e-06
## 70: 6.345251e+00      6.1814034 1.3088346   4.72283001 2.325852e-06
## 71: 1.619298e+03     -2.6160137 0.8737725  -2.99393003 2.754091e-03
## 72: 9.940889e-01      3.5072690 4.6128456   0.76032655 4.470594e-01
## 73: 2.104406e+00      4.5891585 4.6126980   0.99489680 3.197865e-01
## 74: 6.285505e+01     -2.1984796 1.1630697  -1.89023891 5.872601e-02
## 75: 3.131528e+01      0.0000000 0.9936711   0.00000000 1.000000e+00
## 76: 1.500262e+02      0.0000000 1.6553427   0.00000000 1.000000e+00
## 77: 1.816878e+06     -1.4122685 0.5071826  -2.78453625 5.360433e-03
## 78: 1.108016e+00      3.6638418 4.6128169   0.79427429 4.270358e-01
## 79: 8.623415e+04    -11.6286515 1.3653638  -8.51688888 1.638966e-17
## 80: 8.279655e+00      6.5653338 1.2405090   5.29245163 1.206874e-07
## 81: 1.476118e+01      7.3993736 0.7369417  10.04064940 1.010070e-23
## 82: 3.333346e+01      0.0000000 1.5318696   0.00000000 1.000000e+00
## 83: 1.845840e+00      4.4000607 4.6127165   0.95389792 3.401353e-01
## 84: 1.503525e+04      5.0180290 1.4560561   3.44631564 5.682862e-04
##         baseMean log2FoldChange     lfcSE         stat       pvalue
##             padj         comparison superkingdom                     phylum
##            <num>             <char>       <char>                     <char>
##  1: 5.927911e-04 FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  2:           NA FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  3:           NA FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  4: 1.000000e+00 FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  5:           NA FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  6:           NA FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  7: 1.779526e-01 FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  8: 9.078509e-05 FR_VS_Homo_sapiens     Bacteria             Actinobacteria
##  9: 9.685930e-37 FR_VS_Homo_sapiens     Bacteria              Bacteroidetes
## 10: 9.368255e-04 FR_VS_Homo_sapiens     Bacteria              Bacteroidetes
## 11: 1.000000e+00 FR_VS_Homo_sapiens     Bacteria              Bacteroidetes
## 12: 5.845840e-01 FR_VS_Homo_sapiens     Bacteria              Bacteroidetes
## 13:           NA FR_VS_Homo_sapiens     Bacteria              Bacteroidetes
## 14: 1.000000e+00 FR_VS_Homo_sapiens     Bacteria              Bacteroidetes
## 15: 1.239897e-03 FR_VS_Homo_sapiens     Bacteria              Bacteroidetes
## 16: 6.542101e-52 FR_VS_Homo_sapiens     Bacteria              Bacteroidetes
## 17: 4.767916e-06 FR_VS_Homo_sapiens     Bacteria              Bacteroidetes
## 18: 9.671227e-15 FR_VS_Homo_sapiens     Bacteria Candidatus Melainabacteria
## 19:           NA FR_VS_Homo_sapiens     Bacteria              Cyanobacteria
## 20:           NA FR_VS_Homo_sapiens     Bacteria              Cyanobacteria
## 21: 1.000000e+00 FR_VS_Homo_sapiens     Bacteria            Deferribacteres
## 22: 7.989997e-06 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 23: 9.365428e-05 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 24: 2.255375e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 25:           NA FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 26: 4.992202e-04 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 27: 5.665030e-09 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 28: 5.252768e-06 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 29: 1.456984e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 30: 6.182754e-02 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 31: 4.997002e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 32: 4.018174e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 33: 1.494391e-26 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 34: 3.244327e-85 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 35: 2.891614e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 36:           NA FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 37: 6.144497e-02 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 38:           NA FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 39: 9.089558e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 40: 1.027625e-03 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 41: 6.147927e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 42: 5.955000e-14 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 43: 6.925568e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 44: 1.054103e-03 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 45: 3.459262e-03 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 46: 9.190737e-04 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 47: 1.287002e-25 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 48: 5.454784e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 49: 3.037910e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 50: 2.173604e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 51: 5.177338e-13 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 52: 6.503172e-21 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 53: 9.089558e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 54: 1.088831e-02 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 55: 5.423181e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 56: 1.494637e-01 FR_VS_Homo_sapiens     Bacteria                 Firmicutes
## 57: 9.078509e-05 FR_VS_Homo_sapiens     Bacteria               Fusobacteria
## 58: 6.269971e-22 FR_VS_Homo_sapiens     Bacteria              Lentisphaerae
## 59: 2.254900e-01 FR_VS_Homo_sapiens     Bacteria              Lentisphaerae
## 60: 4.962196e-01 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 61: 6.642725e-03 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 62: 1.243608e-03 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 63: 7.500208e-88 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 64: 5.737530e-12 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 65: 6.919039e-02 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 66:           NA FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 67: 1.000000e+00 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 68: 8.945338e-06 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 69: 1.132439e-05 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 70: 8.373069e-06 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 71: 5.508182e-03 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 72:           NA FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 73: 4.344269e-01 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 74: 9.833193e-02 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 75: 1.000000e+00 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 76: 1.000000e+00 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 77: 1.015661e-02 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 78: 5.394136e-01 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 79: 1.180056e-16 FR_VS_Homo_sapiens     Bacteria             Proteobacteria
## 80: 5.430933e-07 FR_VS_Homo_sapiens     Bacteria              Synergistetes
## 81: 1.038929e-22 FR_VS_Homo_sapiens     Bacteria                Tenericutes
## 82: 1.000000e+00 FR_VS_Homo_sapiens     Bacteria                Tenericutes
## 83: 4.535138e-01 FR_VS_Homo_sapiens     Bacteria                Tenericutes
## 84: 1.239897e-03 FR_VS_Homo_sapiens     Bacteria            Verrucomicrobia
##             padj         comparison superkingdom                     phylum
##                     class                  order
##                    <char>                 <char>
##  1:        Actinobacteria      Bifidobacteriales
##  2:        Actinobacteria      Corynebacteriales
##  3:        Actinobacteria          Micrococcales
##  4:        Actinobacteria    Propionibacteriales
##  5:        Actinobacteria       Streptomycetales
##  6:        Coriobacteriia       Coriobacteriales
##  7:        Coriobacteriia       Coriobacteriales
##  8:        Coriobacteriia         Eggerthellales
##  9:           Bacteroidia          Bacteroidales
## 10:           Bacteroidia          Bacteroidales
## 11:           Bacteroidia          Bacteroidales
## 12:           Bacteroidia          Bacteroidales
## 13:           Bacteroidia          Bacteroidales
## 14:           Bacteroidia          Bacteroidales
## 15:           Bacteroidia          Bacteroidales
## 16:           Bacteroidia          Bacteroidales
## 17:           Bacteroidia          Bacteroidales
## 18:            unassigned     Vampirovibrionales
## 19:         Gloeobacteria        Gloeobacterales
## 20:            unassigned        Oscillatoriales
## 21:       Deferribacteres      Deferribacterales
## 22:               Bacilli             Bacillales
## 23:               Bacilli             Bacillales
## 24:               Bacilli             Bacillales
## 25:               Bacilli             Bacillales
## 26:               Bacilli             Bacillales
## 27:               Bacilli             Bacillales
## 28:               Bacilli        Lactobacillales
## 29:               Bacilli        Lactobacillales
## 30:               Bacilli        Lactobacillales
## 31:            Clostridia          Clostridiales
## 32:            Clostridia          Clostridiales
## 33:            Clostridia          Clostridiales
## 34:            Clostridia          Clostridiales
## 35:            Clostridia          Clostridiales
## 36:            Clostridia          Clostridiales
## 37:            Clostridia          Clostridiales
## 38:            Clostridia          Clostridiales
## 39:            Clostridia          Clostridiales
## 40:            Clostridia          Clostridiales
## 41:            Clostridia          Clostridiales
## 42:            Clostridia          Clostridiales
## 43:            Clostridia          Clostridiales
## 44:            Clostridia          Clostridiales
## 45:            Clostridia          Clostridiales
## 46:            Clostridia          Clostridiales
## 47:            Clostridia          Clostridiales
## 48:            Clostridia          Clostridiales
## 49:            Clostridia Thermoanaerobacterales
## 50:      Erysipelotrichia     Erysipelotrichales
## 51:         Negativicutes      Acidaminococcales
## 52:         Negativicutes        Selenomonadales
## 53:         Negativicutes        Selenomonadales
## 54:         Negativicutes         Veillonellales
## 55:          Tissierellia         Tissierellales
## 56:            unassigned             unassigned
## 57:         Fusobacteriia        Fusobacteriales
## 58:         Lentisphaeria          Victivallales
## 59:         Lentisphaeria          Victivallales
## 60:   Alphaproteobacteria        Caulobacterales
## 61:   Alphaproteobacteria          Kiloniellales
## 62:   Alphaproteobacteria            Rhizobiales
## 63:   Alphaproteobacteria            Rhizobiales
## 64:   Alphaproteobacteria            Rhizobiales
## 65:   Alphaproteobacteria            Rhizobiales
## 66:   Alphaproteobacteria        Rhodobacterales
## 67:   Alphaproteobacteria       Rhodospirillales
## 68:   Alphaproteobacteria       Rhodospirillales
## 69:   Alphaproteobacteria         Sneathiellales
## 70:    Betaproteobacteria        Burkholderiales
## 71:    Betaproteobacteria        Burkholderiales
## 72:   Deltaproteobacteria         Bradymonadales
## 73:   Deltaproteobacteria      Desulfobacterales
## 74:   Deltaproteobacteria     Desulfovibrionales
## 75: Epsilonproteobacteria      Campylobacterales
## 76:   Gammaproteobacteria          Aeromonadales
## 77:   Gammaproteobacteria       Enterobacterales
## 78:   Gammaproteobacteria         Pasteurellales
## 79:   Gammaproteobacteria        Pseudomonadales
## 80:           Synergistia          Synergistales
## 81:            Mollicutes      Acholeplasmatales
## 82:            Mollicutes      Anaeroplasmatales
## 83:            Mollicutes        Mycoplasmatales
## 84:      Verrucomicrobiae     Verrucomicrobiales
##                     class                  order
##                                               family is.significant taxon_level
##                                               <char>         <lgcl>      <char>
##  1:                               Bifidobacteriaceae           TRUE      family
##  2:                                  Segniliparaceae             NA      family
##  3:                                Cellulomonadaceae             NA      family
##  4:                             Propionibacteriaceae          FALSE      family
##  5:                                Streptomycetaceae             NA      family
##  6:                                     Atopobiaceae             NA      family
##  7:                                Coriobacteriaceae          FALSE      family
##  8:                                  Eggerthellaceae           TRUE      family
##  9:                                   Bacteroidaceae           TRUE      family
## 10:                                  Barnesiellaceae           TRUE      family
## 11:                                   Muribaculaceae          FALSE      family
## 12:                                 Odoribacteraceae          FALSE      family
## 13:                               Porphyromonadaceae             NA      family
## 14:                                   Prevotellaceae          FALSE      family
## 15:                                    Rikenellaceae           TRUE      family
## 16:                                   Tannerellaceae           TRUE      family
## 17:                                       unassigned           TRUE      family
## 18:                                       unassigned           TRUE      family
## 19:                                 Gloeobacteraceae             NA      family
## 20:                                 Oscillatoriaceae             NA      family
## 21:                               Deferribacteraceae          FALSE      family
## 22:                                      Bacillaceae           TRUE      family
## 23:                                     Listeriaceae           TRUE      family
## 24:                                 Paenibacillaceae          FALSE      family
## 25:                                   Planococcaceae             NA      family
## 26:                                Staphylococcaceae           TRUE      family
## 27:                           Thermoactinomycetaceae           TRUE      family
## 28:                                  Enterococcaceae           TRUE      family
## 29:                                 Lactobacillaceae          FALSE      family
## 30:                                 Streptococcaceae          FALSE      family
## 31:                                                           FALSE      family
## 32:                            Caldicoprobacteraceae          FALSE      family
## 33:                                 Catabacteriaceae           TRUE      family
## 34:                              Christensenellaceae           TRUE      family
## 35:                                   Clostridiaceae          FALSE      family
## 36:         Clostridiales Family XII. Incertae Sedis             NA      family
## 37:        Clostridiales Family XIII. Incertae Sedis          FALSE      family
## 38:                                Defluviitaleaceae             NA      family
## 39:                                   Eubacteriaceae          FALSE      family
## 40:                               Gracilibacteraceae           TRUE      family
## 41:                           Hungateiclostridiaceae          FALSE      family
## 42:                                  Lachnospiraceae           TRUE      family
## 43:                                 Oscillospiraceae          FALSE      family
## 44:                                   Peptococcaceae           TRUE      family
## 45:                            Peptostreptococcaceae           TRUE      family
## 46:                                  Ruminococcaceae           TRUE      family
## 47:                                   Vallitaleaceae           TRUE      family
## 48:                                       unassigned          FALSE      family
## 49: Thermoanaerobacterales Family IV. Incertae Sedis          FALSE      family
## 50:                              Erysipelotrichaceae          FALSE      family
## 51:                               Acidaminococcaceae           TRUE      family
## 52:                                 Selenomonadaceae           TRUE      family
## 53:                                    Sporomusaceae          FALSE      family
## 54:                                  Veillonellaceae           TRUE      family
## 55:                                 Gottschalkiaceae          FALSE      family
## 56:                                       unassigned          FALSE      family
## 57:                                 Fusobacteriaceae           TRUE      family
## 58:                                                            TRUE      family
## 59:                                   Victivallaceae          FALSE      family
## 60:                                 Caulobacteraceae          FALSE      family
## 61:                                   Kiloniellaceae           TRUE      family
## 62:                                Aurantimonadaceae           TRUE      family
## 63:                               Cohaesibacteraceae           TRUE      family
## 64:                                 Methylocystaceae           TRUE      family
## 65:                                     Rhizobiaceae          FALSE      family
## 66:                                 Rhodobacteraceae             NA      family
## 67:                                 Acetobacteraceae          FALSE      family
## 68:                                Rhodospirillaceae           TRUE      family
## 69:                                  Sneathiellaceae           TRUE      family
## 70:                                 Oxalobacteraceae           TRUE      family
## 71:                                   Sutterellaceae           TRUE      family
## 72:                                       unassigned             NA      family
## 73:                               Desulfobacteraceae          FALSE      family
## 74:                              Desulfovibrionaceae          FALSE      family
## 75:                               Campylobacteraceae          FALSE      family
## 76:                              Succinivibrionaceae          FALSE      family
## 77:                               Enterobacteriaceae           TRUE      family
## 78:                                  Pasteurellaceae          FALSE      family
## 79:                                 Pseudomonadaceae           TRUE      family
## 80:                                   Synergistaceae           TRUE      family
## 81:                               Acholeplasmataceae           TRUE      family
## 82:                               Anaeroplasmataceae          FALSE      family
## 83:                                 Mycoplasmataceae          FALSE      family
## 84:                                  Akkermansiaceae           TRUE      family
##                                               family is.significant taxon_level

FR Taxa that are more similar to C. lupus than to H. sapiens

## Key: <taxon>
##                                                                              taxon
##                                                                             <char>
##  1:    Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae
##  2:       Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales;Segniliparaceae
##  3:          Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales;Eggerthellaceae
##  4:                Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Bacteroidaceae
##  5:                Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Tannerellaceae
##  6:                    Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;unassigned
##  7:                             Bacteria;Firmicutes;Bacilli;Bacillales;Bacillaceae
##  8:                            Bacteria;Firmicutes;Bacilli;Bacillales;Listeriaceae
##  9:                       Bacteria;Firmicutes;Bacilli;Bacillales;Staphylococcaceae
## 10:            Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae
## 11:                   Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae
## 12:                   Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae
## 13:             Bacteria;Firmicutes;Negativicutes;Selenomonadales;Selenomonadaceae
## 14:       Bacteria;Proteobacteria;Alphaproteobacteria;Kiloniellales;Kiloniellaceae
## 15:      Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Aurantimonadaceae
## 16:     Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Cohaesibacteraceae
## 17:       Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Methylocystaceae
## 18:           Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Rhizobiaceae
## 19: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae
## 20:     Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales;Sneathiellaceae
## 21:   Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales;Pseudomonadaceae
##                                                                              taxon
##       l2fc_Hsap   l2fc_Clup         similarity
##           <num>       <num>             <char>
##  1:  -3.2663218  -0.7983588 Closer to C. lupus
##  2:  -8.6093129  -1.8994613 Closer to C. lupus
##  3:  -1.6836342  -1.4653496 Closer to C. lupus
##  4:  -3.6123176  -0.3208338 Closer to C. lupus
##  5:  11.0709957   0.6182840 Closer to C. lupus
##  6:  -3.2327432   0.4131610 Closer to C. lupus
##  7:  -2.0186244  -1.6660527 Closer to C. lupus
##  8:  -2.0955323  -1.7600449 Closer to C. lupus
##  9:  -1.8625862  -1.6204782 Closer to C. lupus
## 10:   0.7973955   0.7715655 Closer to C. lupus
## 11:  -2.1265353  -1.1531527 Closer to C. lupus
## 12:  -1.0640676   0.5864209 Closer to C. lupus
## 13:   4.3671750  -3.5078516 Closer to C. lupus
## 14:   2.8147458  -0.8172475 Closer to C. lupus
## 15: -11.1862966   0.0000000 Closer to C. lupus
## 16: -14.9263778   0.0000000 Closer to C. lupus
## 17: -13.7249573   0.0000000 Closer to C. lupus
## 18:  -3.9049249   0.5748327 Closer to C. lupus
## 19:  -4.0085322  -2.4895519 Closer to C. lupus
## 20: -11.8780238   0.0000000 Closer to C. lupus
## 21: -11.6286515 -11.1961814 Closer to C. lupus
##       l2fc_Hsap   l2fc_Clup         similarity

Heatmap of VST-normalized abundance values

Heatmap of Log2 FC values

Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance

Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance

Genus level

Barplot of abundances

Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus

taxon_level comparison NA FALSE TRUE
genus FR_VS_Canis_lupus 28 93 151
genus FR_VS_Homo_sapiens 28 110 134
genus Homo_sapiens_VS_Canis_lupus 28 118 126

L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus

FR Taxa that are more similar to H. sapiens than to C. lupus

## Key: <taxon>
##                                                                                            taxon
##                                                                                           <char>
##   1: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium
##   2:       Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales;Segniliparaceae;Segniliparus
##   3:            Bacteria;Actinobacteria;Actinobacteria;Micrococcales;Cellulomonadaceae;Oerskovia
##   4:  Bacteria;Actinobacteria;Actinobacteria;Propionibacteriales;Propionibacteriaceae;Raineyella
##   5:      Bacteria;Actinobacteria;Actinobacteria;Streptomycetales;Streptomycetaceae;Streptomyces
##  ---                                                                                            
## 268:              Bacteria;Synergistetes;Synergistia;Synergistales;Synergistaceae;Pyramidobacter
## 269:           Bacteria;Tenericutes;Mollicutes;Acholeplasmatales;Acholeplasmataceae;Acholeplasma
## 270:           Bacteria;Tenericutes;Mollicutes;Anaeroplasmatales;Anaeroplasmataceae;Anaeroplasma
## 271:                 Bacteria;Tenericutes;Mollicutes;Mycoplasmatales;Mycoplasmataceae;Mycoplasma
## 272:    Bacteria;Verrucomicrobia;Verrucomicrobiae;Verrucomicrobiales;Akkermansiaceae;Akkermansia
##          baseMean log2FoldChange     lfcSE      stat       pvalue         padj
##             <num>          <num>     <num>     <num>        <num>        <num>
##   1: 2.566360e+05      -3.012135 0.8905053 -3.382501 7.182906e-04 1.735276e-03
##   2: 6.332257e-01      -8.420383 4.6280473 -1.819425 6.884668e-02 1.158523e-01
##   3: 0.000000e+00       0.000000 0.0000000  0.000000 1.000000e+00           NA
##   4: 3.485552e+00       0.000000 3.4937496  0.000000 1.000000e+00 1.000000e+00
##   5: 0.000000e+00       0.000000 0.0000000  0.000000 1.000000e+00           NA
##  ---                                                                          
## 268: 1.441113e+00       4.432221 2.9860085  1.484330 1.377215e-01 2.126838e-01
## 269: 1.477291e+01       7.789918 0.7566880 10.294755 7.440869e-25 6.051907e-24
## 270: 2.204190e+01       0.000000 1.4004337  0.000000 1.000000e+00 1.000000e+00
## 271: 1.915655e+00       4.842874 4.6127065  1.049899 2.937648e-01 4.049638e-01
## 272: 3.129508e+04       5.286757 1.4467111  3.654328 2.578564e-04 6.622837e-04
##              comparison superkingdom          phylum            class
##                  <char>       <char>          <char>           <char>
##   1: FR_VS_Homo_sapiens     Bacteria  Actinobacteria   Actinobacteria
##   2: FR_VS_Homo_sapiens     Bacteria  Actinobacteria   Actinobacteria
##   3: FR_VS_Homo_sapiens     Bacteria  Actinobacteria   Actinobacteria
##   4: FR_VS_Homo_sapiens     Bacteria  Actinobacteria   Actinobacteria
##   5: FR_VS_Homo_sapiens     Bacteria  Actinobacteria   Actinobacteria
##  ---                                                                 
## 268: FR_VS_Homo_sapiens     Bacteria   Synergistetes      Synergistia
## 269: FR_VS_Homo_sapiens     Bacteria     Tenericutes       Mollicutes
## 270: FR_VS_Homo_sapiens     Bacteria     Tenericutes       Mollicutes
## 271: FR_VS_Homo_sapiens     Bacteria     Tenericutes       Mollicutes
## 272: FR_VS_Homo_sapiens     Bacteria Verrucomicrobia Verrucomicrobiae
##                    order               family           genus is.significant
##                   <char>               <char>          <char>         <lgcl>
##   1:   Bifidobacteriales   Bifidobacteriaceae Bifidobacterium           TRUE
##   2:   Corynebacteriales      Segniliparaceae    Segniliparus          FALSE
##   3:       Micrococcales    Cellulomonadaceae       Oerskovia             NA
##   4: Propionibacteriales Propionibacteriaceae      Raineyella          FALSE
##   5:    Streptomycetales    Streptomycetaceae    Streptomyces             NA
##  ---                                                                        
## 268:       Synergistales       Synergistaceae  Pyramidobacter          FALSE
## 269:   Acholeplasmatales   Acholeplasmataceae    Acholeplasma           TRUE
## 270:   Anaeroplasmatales   Anaeroplasmataceae    Anaeroplasma          FALSE
## 271:     Mycoplasmatales     Mycoplasmataceae      Mycoplasma          FALSE
## 272:  Verrucomicrobiales      Akkermansiaceae     Akkermansia           TRUE
##      taxon_level
##           <char>
##   1:       genus
##   2:       genus
##   3:       genus
##   4:       genus
##   5:       genus
##  ---            
## 268:       genus
## 269:       genus
## 270:       genus
## 271:       genus
## 272:       genus

FR Taxa that are more similar to C. lupus than to H. sapiens

## Key: <taxon>
##                                                                                                 taxon
##                                                                                                <char>
##  1:       Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium
##  2:             Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales;Segniliparaceae;Segniliparus
##  3:                  Bacteria;Actinobacteria;Coriobacteriia;Coriobacteriales;Coriobacteriaceae;Enorma
##  4:               Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales;Eggerthellaceae;Gordonibacter
##  5:                       Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Bacteroidaceae;Bacteroides
##  6:                   Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Tannerellaceae;Parabacteroides
##  7:                           Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;unassigned;Phocaeicola
##  8:                                       Bacteria;Firmicutes;Bacilli;Bacillales;Bacillaceae;Bacillus
##  9:                                      Bacteria;Firmicutes;Bacilli;Bacillales;Listeriaceae;Listeria
## 10:                           Bacteria;Firmicutes;Bacilli;Bacillales;Staphylococcaceae;Staphylococcus
## 11:                  Bacteria;Firmicutes;Bacilli;Lactobacillales;Lactobacillaceae;Limosilactobacillus
## 12:                                                    Bacteria;Firmicutes;Clostridia;Clostridiales;;
## 13:                                      Bacteria;Firmicutes;Clostridia;Clostridiales;;Intestinimonas
## 14:                          Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae;Alkaliphilus
## 15:                          Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae;Falcatimonas
## 16:                            Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae;Hungatella
## 17:                         Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae;Lactonifactor
## 18:                         Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae;Youngiibacter
## 19: Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiales Family XIII. Incertae Sedis;Casaltella
## 20:                          Bacteria;Firmicutes;Clostridia;Clostridiales;Eubacteriaceae;Anaerofustis
## 21:                     Bacteria;Firmicutes;Clostridia;Clostridiales;Eubacteriaceae;Intestinibacillus
## 22:               Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae;Anaerobacterium
## 23:                       Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae;Ercella
## 24:             Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae;Pseudoclostridium
## 25:             Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae;Ruminiclostridium
## 26:                         Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Agathobacter
## 27:                           Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Anaerobium
## 28:                      Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Anaerobutyricum
## 29:                        Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Anaerocolumna
## 30:                         Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Anaerotaenia
## 31:                         Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Anaerotignum
## 32:                          Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Bariatricus
## 33:                              Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Blautia
## 34:                          Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Coprococcus
## 35:                        Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Enterocloster
## 36:                           Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Kineothrix
## 37:                    Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Lachnoclostridium
## 38:                          Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Lachnospira
## 39:                          Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Lachnotalea
## 40:                         Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Lacrimispora
## 41:                       Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Marvinbryantia
## 42:                   Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Mediterraneibacter
## 43:                           Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Sellimonas
## 44:                           Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Tyzzerella
## 45:                       Bacteria;Firmicutes;Clostridia;Clostridiales;Oscillospiraceae;Oscillibacter
## 46:                       Bacteria;Firmicutes;Clostridia;Clostridiales;Peptococcaceae;Dehalobacterium
## 47:                    Bacteria;Firmicutes;Clostridia;Clostridiales;Peptococcaceae;Desulfitobacterium
## 48:                           Bacteria;Firmicutes;Clostridia;Clostridiales;Peptococcaceae;Peptococcus
## 49:                 Bacteria;Firmicutes;Clostridia;Clostridiales;Peptostreptococcaceae;Clostridioides
## 50:                Bacteria;Firmicutes;Clostridia;Clostridiales;Peptostreptococcaceae;Intestinibacter
## 51:                     Bacteria;Firmicutes;Clostridia;Clostridiales;Peptostreptococcaceae;Romboutsia
## 52:               Bacteria;Firmicutes;Clostridia;Clostridiales;Peptostreptococcaceae;Terrisporobacter
## 53:                        Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Anaerotruncus
## 54:                        Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Drancourtella
## 55:                     Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Faecalibacterium
## 56:                       Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Flavonifractor
## 57:                             Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Gemmiger
## 58:                         Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Harryflintia
## 59:                     Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Negativibacillus
## 60:                           Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Paludicola
## 61:                        Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Papillibacter
## 62:                               Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Phocea
## 63:                          Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Sporobacter
## 64:                           Bacteria;Firmicutes;Clostridia;Clostridiales;unassigned;Natranaerovirga
## 65:         Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Amedibacillus
## 66:         Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Faecalicoccus
## 67:          Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Faecalitalea
## 68:          Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Longibaculum
## 69:     Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Massilimicrobiota
## 70:          Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Turicibacter
## 71:            Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;unassigned
## 72:      Bacteria;Firmicutes;Negativicutes;Acidaminococcales;Acidaminococcaceae;Phascolarctobacterium
## 73:                      Bacteria;Firmicutes;Negativicutes;Selenomonadales;Selenomonadaceae;Megamonas
## 74:                      Bacteria;Firmicutes;Negativicutes;Veillonellales;Veillonellaceae;Veillonella
## 75:               Bacteria;Proteobacteria;Alphaproteobacteria;Kiloniellales;Kiloniellaceae;Kiloniella
## 76:              Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Aurantimonadaceae;Martelella
## 77:          Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Cohaesibacteraceae;Cohaesibacter
## 78:             Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Methylocystaceae;Terasakiella
## 79:                 Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Rhizobiaceae;Gellertiella
## 80:                 Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Rhizobiaceae;Liberibacter
## 81: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;Pararhodospirillum
## 82:     Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;Rhodospirillum
## 83:      Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;Varunaivibrio
## 84:            Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales;Sneathiellaceae;Sneathiella
## 85:          Bacteria;Proteobacteria;Betaproteobacteria;Burkholderiales;Sutterellaceae;Parasutterella
## 86:              Bacteria;Proteobacteria;Betaproteobacteria;Burkholderiales;Sutterellaceae;Sutterella
## 87:       Bacteria;Proteobacteria;Deltaproteobacteria;Desulfovibrionales;Desulfovibrionaceae;Lawsonia
## 88:        Bacteria;Proteobacteria;Gammaproteobacteria;Enterobacterales;Enterobacteriaceae;Salmonella
## 89:          Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales;Pseudomonadaceae;Pseudomonas
##                                                                                                 taxon
##       l2fc_Hsap    l2fc_Clup         similarity
##           <num>        <num>             <char>
##  1:  -3.0121350  -0.45848747 Closer to C. lupus
##  2:  -8.4203829  -1.40937122 Closer to C. lupus
##  3:   5.0471647  -0.31432304 Closer to C. lupus
##  4:  -8.0370963  -1.40937122 Closer to C. lupus
##  5:  -3.2764497   0.17489948 Closer to C. lupus
##  6:  11.4187943   1.05441409 Closer to C. lupus
##  7:  -2.9015252   0.87317838 Closer to C. lupus
##  8:  -1.6711065  -1.15847275 Closer to C. lupus
##  9:  -1.7325043  -1.24549702 Closer to C. lupus
## 10:  -1.5396447  -1.13892569 Closer to C. lupus
## 11:  -1.5753817  -1.24287066 Closer to C. lupus
## 12:  -2.4241160  -0.93255360 Closer to C. lupus
## 13:   5.6137653   4.53194437 Closer to C. lupus
## 14:   7.9662512   1.21500323 Closer to C. lupus
## 15:   9.7212944   3.54891281 Closer to C. lupus
## 16:  -2.2685869  -1.02369091 Closer to C. lupus
## 17:  -2.8134690   0.35375270 Closer to C. lupus
## 18:   4.8480726   1.43620108 Closer to C. lupus
## 19:  -4.6429235  -0.03312775 Closer to C. lupus
## 20:  -2.6533653  -2.43702962 Closer to C. lupus
## 21:   6.6954329   1.88285865 Closer to C. lupus
## 22:   6.0600100   0.04022364 Closer to C. lupus
## 23:   2.5581997   1.42021052 Closer to C. lupus
## 24:   6.8876137   0.87233094 Closer to C. lupus
## 25:   9.1636065  -0.25598439 Closer to C. lupus
## 26:   6.1455246   3.72279368 Closer to C. lupus
## 27:   3.0464523   1.29284569 Closer to C. lupus
## 28:  -2.5386162   2.22508313 Closer to C. lupus
## 29:   8.5700320   0.62569438 Closer to C. lupus
## 30:   8.1713097  -1.78185089 Closer to C. lupus
## 31:  -3.5862784  -2.73691372 Closer to C. lupus
## 32:   1.0887688  -0.79589460 Closer to C. lupus
## 33:  -3.0364066  -1.85596209 Closer to C. lupus
## 34:   4.8278317   1.59290285 Closer to C. lupus
## 35:  -2.0270751  -0.39036706 Closer to C. lupus
## 36:   9.8425707   5.22915149 Closer to C. lupus
## 37:  -3.0551890   0.07520953 Closer to C. lupus
## 38:   1.8323938   0.33081000 Closer to C. lupus
## 39:   3.8627132  -0.53622307 Closer to C. lupus
## 40:  -1.3003321  -0.09307424 Closer to C. lupus
## 41:   8.3857904   3.65936264 Closer to C. lupus
## 42:  -1.1338351  -0.88145409 Closer to C. lupus
## 43: -13.2627548 -12.46632195 Closer to C. lupus
## 44:   2.3586337  -2.23445574 Closer to C. lupus
## 45:   2.2487110   2.20078689 Closer to C. lupus
## 46:   6.4024863   1.87584528 Closer to C. lupus
## 47:  -8.6621871  -1.40937122 Closer to C. lupus
## 48:  40.4685469  -6.01928652 Closer to C. lupus
## 49:  -1.5610424  -1.41825060 Closer to C. lupus
## 50:   9.5402355   5.11186000 Closer to C. lupus
## 51:   5.8655750  -2.51003488 Closer to C. lupus
## 52:   8.8142631   3.01338942 Closer to C. lupus
## 53:  -1.3451341   0.03901538 Closer to C. lupus
## 54:  -5.2276875   0.91190120 Closer to C. lupus
## 55:  -1.4734777   0.21886642 Closer to C. lupus
## 56:  -2.2278250  -0.02580101 Closer to C. lupus
## 57:   7.3590627   7.15431632 Closer to C. lupus
## 58:  -1.0563060  -1.04835158 Closer to C. lupus
## 59:   2.9751339  -2.36409462 Closer to C. lupus
## 60:  -1.4565717   0.04691463 Closer to C. lupus
## 61:   7.6858652  -0.24657961 Closer to C. lupus
## 62:  -0.7193905  -0.61018800 Closer to C. lupus
## 63:   2.6545190   1.36413873 Closer to C. lupus
## 64:   5.8083940   2.30216304 Closer to C. lupus
## 65:   4.9986425  -1.93472411 Closer to C. lupus
## 66:   7.1418170   2.82473557 Closer to C. lupus
## 67:   4.6258178  -0.39030713 Closer to C. lupus
## 68:   5.6191826   1.69614454 Closer to C. lupus
## 69: -13.5202087   0.00000000 Closer to C. lupus
## 70:   7.3476391  -2.62988277 Closer to C. lupus
## 71:   5.6579576  -2.05636756 Closer to C. lupus
## 72:  -3.6584119  -3.53507685 Closer to C. lupus
## 73:   4.7538952  -2.98159218 Closer to C. lupus
## 74:  -1.5359058  -1.04429418 Closer to C. lupus
## 75:   3.1709134  -0.33481682 Closer to C. lupus
## 76: -10.8480897   0.00000000 Closer to C. lupus
## 77: -14.5414943   0.00000000 Closer to C. lupus
## 78: -13.3545433   0.00000000 Closer to C. lupus
## 79: -11.4251264  -9.22520449 Closer to C. lupus
## 80: -13.1884608   0.00000000 Closer to C. lupus
## 81:  -8.9650480   0.00000000 Closer to C. lupus
## 82:  -9.7719266   0.00000000 Closer to C. lupus
## 83: -12.9994904   0.00000000 Closer to C. lupus
## 84: -11.4905833   0.00000000 Closer to C. lupus
## 85:  -3.4903825  -3.27446855 Closer to C. lupus
## 86:  24.4263376  -5.19640477 Closer to C. lupus
## 87:  -8.3976898  -1.40937122 Closer to C. lupus
## 88:  -1.4625887  -0.94143418 Closer to C. lupus
## 89: -11.1658289 -10.76282595 Closer to C. lupus
##       l2fc_Hsap    l2fc_Clup         similarity

Heatmap of VST-normalized abundance values

Heatmap of Log2 FC values

Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance

Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance

Species level

Barplot of abundances

Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus

taxon_level comparison NA FALSE TRUE
species FR_VS_Canis_lupus 63 167 354
species FR_VS_Homo_sapiens 72 262 250
species Homo_sapiens_VS_Canis_lupus 63 229 292

L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus

FR Taxa that are more similar to H. sapiens than to C. lupus

## Key: <taxon>
##                                                                                                                         taxon
##                                                                                                                        <char>
##   1: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium adolescentis
##   2:     Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium animalis
##   3:      Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium bifidum
##   4:    Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium choerinum
##   5:      Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium faecale
##  ---                                                                                                                         
## 580:           Bacteria;Tenericutes;Mollicutes;Anaeroplasmatales;Anaeroplasmataceae;Anaeroplasma;Anaeroplasma abactoclasticum
## 581:                    Bacteria;Tenericutes;Mollicutes;Anaeroplasmatales;Anaeroplasmataceae;Anaeroplasma;Anaeroplasma varium
## 582:                        Bacteria;Tenericutes;Mollicutes;Mycoplasmatales;Mycoplasmataceae;Mycoplasma;Mycoplasma capricolum
## 583:                          Bacteria;Tenericutes;Mollicutes;Mycoplasmatales;Mycoplasmataceae;Mycoplasma;Mycoplasma mycoides
## 584:         Bacteria;Verrucomicrobia;Verrucomicrobiae;Verrucomicrobiales;Akkermansiaceae;Akkermansia;Akkermansia muciniphila
##          baseMean log2FoldChange     lfcSE       stat       pvalue         padj
##             <num>          <num>     <num>      <num>        <num>        <num>
##   1: 3.400317e+05      -7.398759 0.8284125  -8.931251 4.212188e-19 2.396267e-18
##   2: 2.712821e+00       0.000000 4.5665567   0.000000 1.000000e+00 1.000000e+00
##   3: 6.084718e+01       9.798857 3.5284153   2.777127 5.484176e-03 1.293962e-02
##   4: 1.000745e+01       0.000000 3.5351808   0.000000 1.000000e+00 1.000000e+00
##   5: 8.652650e+02     -32.723418 2.0996891 -15.584887 9.222630e-55 1.686424e-53
##  ---                                                                           
## 580: 1.197086e+01       0.000000 1.4863526   0.000000 1.000000e+00 1.000000e+00
## 581: 4.054502e+00       0.000000 2.9345498   0.000000 1.000000e+00 1.000000e+00
## 582: 2.406039e+00       5.138476 4.6127224   1.113979 2.652882e-01 4.115987e-01
## 583: 0.000000e+00       0.000000 0.0000000   0.000000 1.000000e+00           NA
## 584: 3.919312e+04       5.761607 1.4645784   3.933970 8.355424e-05 2.416936e-04
##              comparison superkingdom          phylum            class
##                  <char>       <char>          <char>           <char>
##   1: FR_VS_Homo_sapiens     Bacteria  Actinobacteria   Actinobacteria
##   2: FR_VS_Homo_sapiens     Bacteria  Actinobacteria   Actinobacteria
##   3: FR_VS_Homo_sapiens     Bacteria  Actinobacteria   Actinobacteria
##   4: FR_VS_Homo_sapiens     Bacteria  Actinobacteria   Actinobacteria
##   5: FR_VS_Homo_sapiens     Bacteria  Actinobacteria   Actinobacteria
##  ---                                                                 
## 580: FR_VS_Homo_sapiens     Bacteria     Tenericutes       Mollicutes
## 581: FR_VS_Homo_sapiens     Bacteria     Tenericutes       Mollicutes
## 582: FR_VS_Homo_sapiens     Bacteria     Tenericutes       Mollicutes
## 583: FR_VS_Homo_sapiens     Bacteria     Tenericutes       Mollicutes
## 584: FR_VS_Homo_sapiens     Bacteria Verrucomicrobia Verrucomicrobiae
##                   order             family           genus
##                  <char>             <char>          <char>
##   1:  Bifidobacteriales Bifidobacteriaceae Bifidobacterium
##   2:  Bifidobacteriales Bifidobacteriaceae Bifidobacterium
##   3:  Bifidobacteriales Bifidobacteriaceae Bifidobacterium
##   4:  Bifidobacteriales Bifidobacteriaceae Bifidobacterium
##   5:  Bifidobacteriales Bifidobacteriaceae Bifidobacterium
##  ---                                                      
## 580:  Anaeroplasmatales Anaeroplasmataceae    Anaeroplasma
## 581:  Anaeroplasmatales Anaeroplasmataceae    Anaeroplasma
## 582:    Mycoplasmatales   Mycoplasmataceae      Mycoplasma
## 583:    Mycoplasmatales   Mycoplasmataceae      Mycoplasma
## 584: Verrucomicrobiales    Akkermansiaceae     Akkermansia
##                           species is.significant taxon_level
##                            <char>         <lgcl>      <char>
##   1: Bifidobacterium adolescentis           TRUE     species
##   2:     Bifidobacterium animalis          FALSE     species
##   3:      Bifidobacterium bifidum           TRUE     species
##   4:    Bifidobacterium choerinum          FALSE     species
##   5:      Bifidobacterium faecale           TRUE     species
##  ---                                                        
## 580: Anaeroplasma abactoclasticum          FALSE     species
## 581:          Anaeroplasma varium          FALSE     species
## 582:        Mycoplasma capricolum          FALSE     species
## 583:          Mycoplasma mycoides             NA     species
## 584:      Akkermansia muciniphila           TRUE     species

FR Taxa that are more similar to C. lupus than to H. sapiens

## Key: <taxon>
##                                                                                                                         taxon
##                                                                                                                        <char>
##   1: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium adolescentis
##   2:      Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium faecale
##   3:              Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales;Segniliparaceae;Segniliparus;Segniliparus rotundus
##   4:                     Bacteria;Actinobacteria;Coriobacteriia;Coriobacteriales;Coriobacteriaceae;Enorma;Enorma massiliensis
##   5:              Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales;Eggerthellaceae;Gordonibacter;Gordonibacter pamelaeae
##  ---                                                                                                                         
## 153: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;Varunaivibrio;Varunaivibrio sulfuroxidans
## 154:       Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales;Sneathiellaceae;Sneathiella;Sneathiella glossodoripedis
## 155:     Bacteria;Proteobacteria;Deltaproteobacteria;Desulfovibrionales;Desulfovibrionaceae;Lawsonia;Lawsonia intracellularis
## 156:           Bacteria;Proteobacteria;Gammaproteobacteria;Enterobacterales;Enterobacteriaceae;Salmonella;Salmonella enterica
## 157:          Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales;Pseudomonadaceae;Pseudomonas;Pseudomonas aeruginosa
##        l2fc_Hsap   l2fc_Clup         similarity
##            <num>       <num>             <char>
##   1:  -7.3987594 -0.20742229 Closer to C. lupus
##   2: -32.7234180  0.00000000 Closer to C. lupus
##   3:  -7.7786398 -0.44928104 Closer to C. lupus
##   4:   5.5083361  1.49181565 Closer to C. lupus
##   5:  -7.5393801  0.00000000 Closer to C. lupus
##  ---                                           
## 153: -12.5413819  0.00000000 Closer to C. lupus
## 154: -11.0557259  0.00000000 Closer to C. lupus
## 155:  -8.0530806 -0.44928104 Closer to C. lupus
## 156:  -0.9950949  0.04819244 Closer to C. lupus
## 157: -10.7212727 -9.77677072 Closer to C. lupus

Heatmap of VST-normalized abundance values

Heatmap of Log2 FC values

Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance

Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance

B-diversity Analysis using sample-wise Bray-Curtis distances

Non-metric Multi-Dimensional Scaling (NMDS)

NMDS v1: color = DNA_isolation_method; shape = Vregion

NMDS v2: color = Vregion; shape = DNA_isolation_method